Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F2 I225 R1
|
227 |
21.4 |
1179702 |
97.1% |
1145490 |
86.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,739,096 |
T→C |
E61G (GAA→GGA) |
rimM ← |
ribosome maturation factor RimM |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,739,096 | 0 | T | C | 100.0%
| 17.3
/ NA
| 7 | E61G (GAA→GGA) | rimM | ribosome maturation factor RimM |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (3/4); total (3/4) |
ATTCGTCAGCAGGTTCGCCGCATCACGATCGTCAACGCCTTTCAGCTTGATGATCATGTCCTGATTGTGGTGCTTCCAGCTTTCCAGCTGGACTTGCTGCCACTGACCCGCCTTCTGGATAAACCAGGGCTGATAGTCAAAAATGCTTTCGGCGTC > NZ_CP009273/2739014‑2739169
|
aTTCGTCAGCAGGTTCGCCGCATCACGATCGTCAACGCCTTTCAGCTTGATGATCATGTCCTGATTGTGGTGCTTCCAGCTTCCCAGCTg < 2:184245/90‑1 (MQ=255)
gcagGTTCGCCGCATCACGATCGTCAACGCCTTTCAGCTTGATGATCATGTCCTGATTGTGGTGCTTCCAGCTTCCCAGCTGGACTtgct < 1:16030/90‑1 (MQ=255)
tCGCCGCATCACGATCGTCAACGCCTTTCAGCTTGATGATCATGTCCTGATTGTGGTGCTTCCAGCTTCCCAGCTGGACTTGCTGCCACt > 1:72867/1‑90 (MQ=255)
gTCAACGCCTTTCAGCTTGATGATCATGTCCTGATTGTGGTGCTTCCAGCTTCCCAGCTGGACTTGCTGCCACTGACCCGCCTTCTGGAt < 2:142809/90‑1 (MQ=255)
aTTGTGGTGCTTCCAGCTTCCCAGCTGGACTTGCTGCCACTGACCCGCCTTCTGGATAAACCAGGGCTGATAGTCAAAAATGCTTTCGGc < 2:62793/90‑1 (MQ=255)
gtggtgCTTCCAGCTTCCCAGCTGGACTTGCTGCCACTGACCCGCCTTCTGGATAAACCAGGGCTGATAGTCAAAAATGCTTTCGGCGTc > 1:577436/1‑90 (MQ=255)
gtggtgCTTCCAGCTTCCCAGCTGGACTTGCTGCCACTGACCCGCCTTCTGGATAAACCAGGGCTGATAGTCAAAAATGCTTTCGGCGTc > 2:505092/1‑90 (MQ=255)
|
ATTCGTCAGCAGGTTCGCCGCATCACGATCGTCAACGCCTTTCAGCTTGATGATCATGTCCTGATTGTGGTGCTTCCAGCTTTCCAGCTGGACTTGCTGCCACTGACCCGCCTTCTGGATAAACCAGGGCTGATAGTCAAAAATGCTTTCGGCGTC > NZ_CP009273/2739014‑2739169
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TTTCACAATTCGTCAGCAGGTTCGCCGCATCACGATCGTCAACGCCTTTCAGCTTGATGATCATGTCCTGATTGTGGTGCTTCCAGCTTTCCAGCTGGACTTGCTGCCACTGACCCGCCTTCTGGATAAACCAGGGCTGATAGTCAAAAATGCTTTCGGCGTCTTCGGTGGAAGAAAACACTCTGAGC > NZ_CP009273/2739007‑2739194
|
TTTCACAATTCGTCAGCAGGTTCGCCGCATCACGATCGTCAACGCCTTTCAGCTTGATGATCATGTCCTGATTGTGGTGCTTCCAGCTTCCCAGCTGGAC < SRR3722109.405827/100‑1 (MQ=60)
GTCAGCAGGTTCGCCGCATCACGATCGTCAACGCCTTTCAGCTTGATGATCATGTCCTGATTGTGGTGCTTCCAGCTTCCCAGCTGGACTTGCTGCCACT > SRR3722109.73744/1‑100 (MQ=60)
GCAGGTTCGCCGCATCACGATCGTCAACGCCTTTCAGCTTGATGATCATGTCCTGATTGTGGTGCTTCCAGCTTCCCAGCTGGACTTGCTGCCACTGACC < SRR3722109.16242/100‑1 (MQ=60)
TGTCCTGATTGTGGTGCTTCCAGCTTCCCAGCTGGACTTGCTGCCACTGACCCGCCTTCTGGATAAACCAGGGCTGATAGTCAAAAATGCTTTCGGCGTC > SRR3722109.586181/1‑100 (MQ=60)
TCCCAGCTGGACTTGCTGCCACTGACCCGCCTTCTGGATAAACCAGGGCTGATAGTCAAAAATGCTTTCGGCGTCTTCGGTGGAAGAAAACACTCTGAGC < SRR3722109.84562/100‑1 (MQ=60)
|
TTTCACAATTCGTCAGCAGGTTCGCCGCATCACGATCGTCAACGCCTTTCAGCTTGATGATCATGTCCTGATTGTGGTGCTTCCAGCTTTCCAGCTGGACTTGCTGCCACTGACCCGCCTTCTGGATAAACCAGGGCTGATAGTCAAAAATGCTTTCGGCGTCTTCGGTGGAAGAAAACACTCTGAGC > NZ_CP009273/2739007‑2739194
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
